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Chlamydiae/Verrucomicrobia Chloroflexi Cyanobacteria
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Firmicutes Fusobacteria Gammaproteobacteria
Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
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106 projects found  

1 accessions found for Rothia mucilaginosa  

Data for AP011540  

Available Atlases
Other Plots
hmmsearch - search a sequence database with a profile HMM
HMMER 2.3.2 (Oct 2003)
Copyright (C) 1992-2003 HHMI/Washington University School of Medicine
Freely distributed under the GNU General Public License (GPL)
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /home/projects/MicrobialGenomicsGroup/Packages/hmmdata-1.0.0.package/Resources/noarch/TCS/HisKA_1.hmm [HisKA]
Sequence database: AP011540.Gprot.fsa
per-sequence score cutoff: >= 26.8 [TC1]
per-domain score cutoff: >= 26.8 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

Query HMM: HisKA
Accession: PF00512.12
Description: His Kinase A (phosphoacceptor) domain
[HMM has been calibrated; E-values are empirical estimates]

Scores for complete sequences (score includes all domains):
Sequence Description Score E-value N
-------- ----------- ----- ------- ---
AP011540_0035 CDS_35993-37657 82.9 1.8e-23 1
AP011540_0260 CDS_272174-270675 78.5 3.3e-22 1
AP011540_1732 CDS_1951339-1950197 72.8 1.4e-20 1
AP011540_0666 CDS_707602-709356 67.3 4.9e-19 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AP011540_0035 1/1 326 392 .. 1 87 [] 82.9 1.8e-23
AP011540_0260 1/1 257 324 .. 1 87 [] 78.5 3.3e-22
AP011540_1732 1/1 152 218 .. 1 87 [] 72.8 1.4e-20
AP011540_0666 1/1 318 385 .. 1 87 [] 67.3 4.9e-19

Alignments of top-scoring domains:
AP011540_0035: domain 1 of 1, from 326 to 392: score 82.9, E = 1.8e-23
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ + f+a++sHELRTPL+aI+gy+++L+ ++lse
AP011540_0 326 QIRAFIADASHELRTPLAAIKGYSDMLRW--------TEPLSESG-- 362

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ l +i++++er++rL++dlL+l+r+++g
AP011540_0 363 ----------QSSLARIDSQTERMSRLVEDLLTLARLDEG 392

AP011540_0260: domain 1 of 1, from 257 to 324: score 78.5, E = 3.3e-22
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++f+ ++sHELRTPL +Irgy+el + ++l+ +++
AP011540_0 257 KMRRFVGDASHELRTPLVSIRGYSELYRQ---------GALPTDEA- 293

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ + ++i++e++r+ +L++dlL+l+ri++
AP011540_0 294 ---------VATAMSRIESESKRMGQLVEDLLTLARIDER 324

AP011540_1732: domain 1 of 1, from 152 to 218: score 72.8, E = 1.4e-20
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++f+an+sHEL+TP+ a++++ae+++ + ++e +
AP011540_1 152 MRNDFVANVSHELKTPVGAVSLLAEAIEQ---------ASDDPEAI- 188

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ ++ ++++e++rl++L++d+ +lsr+++
AP011540_1 189 ----------EYFVGRLHKETRRLSALVRDIIELSRLQST 218

AP011540_0666: domain 1 of 1, from 318 to 385: score 67.3, E = 4.9e-19
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++f++++sHELRTPL+++r+ +elL + t e ++
AP011540_0 318 LQQRFVSDVSHELRTPLSTVRLGTELLYD---------TRDEMERTQ 355

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +e ++++++r +++++dlL++sr +ag
AP011540_0 356 ----------SRTVELLHDQVDRFQSMLSDLLEISRFDAG 385


Histogram of all scores:
score obs exp (one = represents 8 sequences)
----- --- ---
-15 1 0|=
-14 5 0|=
-13 19 1|*==
-12 64 45|=====*==
-11 168 236|===================== *
-10 309 438|======================================= *
-9 424 452|===================================================== *
-8 362 338|==========================================*===
-7 272 213|==========================*=======
-6 159 122|===============*====
-5 93 67|========*===
-4 52 36|====*==
-3 26 19|==*=
-2 9 9|=*
-1 9 5|*=
0 5 2|*
1 4 1|*
2 0 0|
3 5 0|=
> 4 6 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 117.3967
P(chi-square) = 6.048e-20

Total sequences searched: 1992

Whole sequence top hits:
tophits_s report:
Total hits: 4
Satisfying E cutoff: 4
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 4
Satisfying E cutoff: 4
Total memory: 22K


Acknowledgements:

This research is funded by:

Developed by: